I just uploaded a new Bundle::BioPerl to CPAN -- should be available
within a few hours on search.cpan.org. Not sure how long it will take to
filter out to all the CPAN mirrors, probably 24 hours or so.
The new Bundle has "SVG::Graph" as an additional dependency.
That module in turn depends on:
Tree::DAG_Node
SVG
Statistics::Descriptive
Math::Spline
Math::Derivative
SVG is in the Bundle::BioPerl but I left the others out. The CPAN script
will follow the SVG::Graph dependency tree if the user allows
-Chris
> The uploaded file
>> Bundle-BioPerl-2.1.5.tar.gz
>> has entered CPAN as
>> file: $CPAN/authors/id/C/CR/CRAFFI/Bundle-BioPerl-2.1.5.tar.gz
> size: 3175 bytes
> md5: fb3a5f1873b7c91f699de204aaad0277
>> No action is required on your part
> Request entered by: CRAFFI (Chris Dagdigian)
> Request entered on: Wed, 21 Apr 2004 18:29:55 GMT
> Request completed: Wed, 21 Apr 2004 18:30:24 GMT
Jason Stajich wrote:
> On Wed, 21 Apr 2004, Dave Howorth wrote:
>>>>Based on my experience, I'd like to suggest the following changes to
>>make it easier for neophytes to patch a bioperl release:
>>>>>>On http://cvs.bioperl.org>>-------------------------
>>>>At the bottom of the page, add an example on how to patch an existing
>>installation. Or refer to somewhere else that does. Specifically give an
>>example of the use of tags and explain where to find the upgrade/install
>>instructions (I previously installed bioperl from CPAN so I had no idea
>>how to use the cvs system. The page asks "Do you really want to be
>>here?" to which my answer is "No, but I have to be because of bugs", and
>>I think the page should address that audience). e.g.:
>>>> "To patch an existing release, find the cvs tag of the appropriate
>> branch (need to describe how!!) then type:
>> cvs -d :pserver:cvs at cvs.open-bio.org:/home/repository/bioperl \
>> checkout -r branch-1-4 bioperl-live
>> Then follow the normal install instructions in the INSTALL document
>>in the top level directory (probably need more here!!!)"
>>>>>>In Makefile.PL
>>--------------
>>>>It picked up a missing dependency on GD::SVG and on SVG, but it failed
>>to pick up on a dependency on SVG::Graph.
>>>>I'd also suggest that where Makefile.PL prints out:
>> "Enjoy the rest of bioperl, which you can use after going
>> 'make install'"
>>it could increase the warm fuzziness if it was expanded to say:
>> "You can install the external packages now and then rerun
>> 'make Makefile.PL' or just enjoy the rest of bioperl,
>> which you can use after going 'make install'."
>>>> Allen needs to add this to Makefile.PL and Chris needs to add it to
> Bundle::BioPerl.
>>>>>>>Cheers, Dave